Plant Circular RNA Database

Detail information of Os12g0175800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0175800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010666
					
						Alias
						Os_ciR4629
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 3858275-3859850  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os12g0175800						
					
						Parent gene annotation
						
							Hypothetical gene. (Os12t0175800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0175700_circ_g.1 Os12g0175700_circ_g.2 						
					
						Support reads
						4/3
					
						Tissues
						root/root
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os12t0175700-01:3
Os12t0175800-01:4
Os12t0175700-01:3

General Information
CircRNA Name	Os12g0175800_circ_g.1
ID in PlantcircBase	osa_circ_010666
Alias	Os_ciR4629
Organism	Oryza sativa
Position	chr12: 3858275-3859850 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os12g0175800
Parent gene annotation	Hypothetical gene. (Os12t0175800-01)
Parent gene strand	-
Alternative splicing	Os12g0175700_circ_g.1 Os12g0175700_circ_g.2
Support reads	4/3
Tissues	root/root
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os12t0175700-01:3 Os12t0175800-01:4 Os12t0175700-01:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							CCTTACACCTTCTGTTATCTCATTGATGGGTGGGCTGCTTCCCTTTGGCAGTATCTTCATTGAG
ATGTACTTTGTGTTCACGTCATTCTGGAACTACAAGgagagagatgttaatgaggaatctggat
ggaagcttgttcatggtgatgtatttcgccctcctcgaagtttggcctttctttctgcagttgt
tggcatcg

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 113
Transcript exons: 3858275-3858348,3859812-3859850
GAGAGAGATGTTAATGAGGAATCTGGATGGAAGCTTGTTCATGGTGATGTATTTCGCCCTCCTC
GAAGTTTGGCGAGATGTACTTTGTGTTCACGTCATTCTGGAACTACAAG
Transcript length: 636
Transcript exons: 3858275-3858441,3859175-3859269,3859477-3859850
GAGAGAGATGTTAATGAGGAATCTGGATGGAAGCTTGTTCATGGTGATGTATTTCGCCCTCCTC
GAAGTTTGGCCTTTCTTTCTGCAGTTGTTGGCATCGGCACTCAGCTGGCAGCTCTTATCCTTCT
TGTTATTGTATTGGCCATTGTTGGCATGCTATATGTTGGGCGAGGGTCTATCATCACAACCTTC
ATTGTGTGCTATGCTCTTACATCTTTTATTTCTGGCTATGTCAGTGGTGGCCTCTACTCAAGGA
ATGGTGGTAAAAACTGGATAAAGGCTATGATCCTTACAGCATCCCTATTTCCATTCTTGTGCTT
TGCAATTGGCTTTGTTCTGAATACAATTGCTATCTTCTACCGATCATTAGCGGCAATACCATTC
GGCACAATGGTTGTCATGTTCGTTCTTTGGGCCTTCATTTCTTTTCCGCTGGTGCTTCTGGGAA
CTGTTGTTGGTAGGAACTGGAGTGGTGCTCCTAACAATCCCTGCCGAGTAAAGACTATTCCACG
GCCTATTCCAGAGAAGAAGTGGTACCTTACACCTTCTGTTATCTCATTGATGGGTGGGCTGCTT
CCCTTTGGCAGTATCTTCATTGAGATGTACTTTGTGTTCACGTCATTCTGGAACTACAAG
						
					

						Genomic sequence
						
							GAGAGAGATGTTAATGAGGAATCTGGATGGAAGCTTGTTCATGGTGATGTATTTCGCCCTCCTC
GAAGTTTGGCCTTTCTTTCTGCAGTTGTTGGCATCGGCACTCAGCTGGCAGCTCTTATCCTTCT
TGTTATTGTATTGGCCATTGTTGGCATGCTATATGTTGGGTAAGCAACCCCCATCCCCAAAATC
TCCTTGCACATACAATGCATAGTTTGGAATACCTGAGTTGCTGACCAATGAAACTACCATATTA
CTCAATAGATGAAAGAAAGAAGATAGGGAATACCTGAACTTGTTAGGTTCCCACCACATGTTTT
TTGAAAGCTGTCCAGGAACCTTCCATGTCCTGTACTTTACCTGGAAAATCTTGATTCTGCAGTA
ATCAATTTCAATAATGAAGAATTGTTCTGAATCTAACATGCATAATAGACAATTTTGTTAAAAT
GTCTTGGATTAAATTTTCTGCATCTGGTTGGTATGACTTAAAACTACTGGGAACTGGCTCACCA
CTCACCAGTCGTCTGAACCTGAGAAACAACGGCACATAGGTTGTTAAGTGCAGATAACATTTTG
GTCAAACGACTATTTCTTGTTTATGTCCTAACCATGCTGAAAAGAACTAAGAAAAGAAAGGAAC
TGTACCTTTTCATTGTCCAAAAATTGCCTTGTATTGTGTTTCTCACTTTACTGGTTGGAGTGGT
GGAATGTCTGCCTTCTGTTAAAAATGCACACATCCATTAGCCCAAATCCCTAAGGCCTGTGATT
GTATGAATCCTAAAGATATAAAATTCCTATATTATTTTGAAAACAGCTTTAAGTTTTTTTCTTT
TTTTTAGCATTTCACATTTTGTGCATGGATTTGCTTTTCTAACTTATATAGCGCGCGATATTTG
TCAGGCGAGGGTCTATCATCACAACCTTCATTGTGTGCTATGCTCTTACATCTTTTATTTCTGG
CTATGTCAGTGGTGGCCTCTACTCAAGGAATGGTGGTATGGTTCTTTCCTTTTGGAATTGCATT
ATTTTCTTGTATTATTTGTCTGTGCAATTCAATCTCTTCTCAAGGTTCTGTTTCATAGTTTCCT
CCTGTCATTCCTTTTTTTTTTTTTGAAGTTTCTAGAATTTGCATGTTGTCATATATTATATTTT
CCCACTTCATGATGTATGGTTTTTTGAACCGTAATTTCCTTACATGGCAGGTAAAAACTGGATA
AAGGCTATGATCCTTACAGCATCCCTATTTCCATTCTTGTGCTTTGCAATTGGCTTTGTTCTGA
ATACAATTGCTATCTTCTACCGATCATTAGCGGCAATACCATTCGGCACAATGGTTGTCATGTT
CGTTCTTTGGGCCTTCATTTCTTTTCCGCTGGTGCTTCTGGGAACTGTTGTTGGTAGGAACTGG
AGTGGTGCTCCTAACAATCCCTGCCGAGTAAAGACTATTCCACGGCCTATTCCAGAGAAGAAGT
GGTACCTTACACCTTCTGTTATCTCATTGATGGGTGGGCTGCTTCCCTTTGGCAGTATCTTCAT
TGAGATGTACTTTGTGTTCACGTCATTCTGGAACTACAAG
						
					

			
		

Sequences
Splice junction sequence	CCTTACACCTTCTGTTATCTCATTGATGGGTGGGCTGCTTCCCTTTGGCAGTATCTTCATTGAG ATGTACTTTGTGTTCACGTCATTCTGGAACTACAAGgagagagatgttaatgaggaatctggat ggaagcttgttcatggtgatgtatttcgccctcctcgaagtttggcctttctttctgcagttgt tggcatcg
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 113 Transcript exons: 3858275-3858348,3859812-3859850 GAGAGAGATGTTAATGAGGAATCTGGATGGAAGCTTGTTCATGGTGATGTATTTCGCCCTCCTC GAAGTTTGGCGAGATGTACTTTGTGTTCACGTCATTCTGGAACTACAAG Transcript length: 636 Transcript exons: 3858275-3858441,3859175-3859269,3859477-3859850 GAGAGAGATGTTAATGAGGAATCTGGATGGAAGCTTGTTCATGGTGATGTATTTCGCCCTCCTC GAAGTTTGGCCTTTCTTTCTGCAGTTGTTGGCATCGGCACTCAGCTGGCAGCTCTTATCCTTCT TGTTATTGTATTGGCCATTGTTGGCATGCTATATGTTGGGCGAGGGTCTATCATCACAACCTTC ATTGTGTGCTATGCTCTTACATCTTTTATTTCTGGCTATGTCAGTGGTGGCCTCTACTCAAGGA ATGGTGGTAAAAACTGGATAAAGGCTATGATCCTTACAGCATCCCTATTTCCATTCTTGTGCTT TGCAATTGGCTTTGTTCTGAATACAATTGCTATCTTCTACCGATCATTAGCGGCAATACCATTC GGCACAATGGTTGTCATGTTCGTTCTTTGGGCCTTCATTTCTTTTCCGCTGGTGCTTCTGGGAA CTGTTGTTGGTAGGAACTGGAGTGGTGCTCCTAACAATCCCTGCCGAGTAAAGACTATTCCACG GCCTATTCCAGAGAAGAAGTGGTACCTTACACCTTCTGTTATCTCATTGATGGGTGGGCTGCTT CCCTTTGGCAGTATCTTCATTGAGATGTACTTTGTGTTCACGTCATTCTGGAACTACAAG
Genomic sequence	GAGAGAGATGTTAATGAGGAATCTGGATGGAAGCTTGTTCATGGTGATGTATTTCGCCCTCCTC GAAGTTTGGCCTTTCTTTCTGCAGTTGTTGGCATCGGCACTCAGCTGGCAGCTCTTATCCTTCT TGTTATTGTATTGGCCATTGTTGGCATGCTATATGTTGGGTAAGCAACCCCCATCCCCAAAATC TCCTTGCACATACAATGCATAGTTTGGAATACCTGAGTTGCTGACCAATGAAACTACCATATTA CTCAATAGATGAAAGAAAGAAGATAGGGAATACCTGAACTTGTTAGGTTCCCACCACATGTTTT TTGAAAGCTGTCCAGGAACCTTCCATGTCCTGTACTTTACCTGGAAAATCTTGATTCTGCAGTA ATCAATTTCAATAATGAAGAATTGTTCTGAATCTAACATGCATAATAGACAATTTTGTTAAAAT GTCTTGGATTAAATTTTCTGCATCTGGTTGGTATGACTTAAAACTACTGGGAACTGGCTCACCA CTCACCAGTCGTCTGAACCTGAGAAACAACGGCACATAGGTTGTTAAGTGCAGATAACATTTTG GTCAAACGACTATTTCTTGTTTATGTCCTAACCATGCTGAAAAGAACTAAGAAAAGAAAGGAAC TGTACCTTTTCATTGTCCAAAAATTGCCTTGTATTGTGTTTCTCACTTTACTGGTTGGAGTGGT GGAATGTCTGCCTTCTGTTAAAAATGCACACATCCATTAGCCCAAATCCCTAAGGCCTGTGATT GTATGAATCCTAAAGATATAAAATTCCTATATTATTTTGAAAACAGCTTTAAGTTTTTTTCTTT TTTTTAGCATTTCACATTTTGTGCATGGATTTGCTTTTCTAACTTATATAGCGCGCGATATTTG TCAGGCGAGGGTCTATCATCACAACCTTCATTGTGTGCTATGCTCTTACATCTTTTATTTCTGG CTATGTCAGTGGTGGCCTCTACTCAAGGAATGGTGGTATGGTTCTTTCCTTTTGGAATTGCATT ATTTTCTTGTATTATTTGTCTGTGCAATTCAATCTCTTCTCAAGGTTCTGTTTCATAGTTTCCT CCTGTCATTCCTTTTTTTTTTTTTGAAGTTTCTAGAATTTGCATGTTGTCATATATTATATTTT CCCACTTCATGATGTATGGTTTTTTGAACCGTAATTTCCTTACATGGCAGGTAAAAACTGGATA AAGGCTATGATCCTTACAGCATCCCTATTTCCATTCTTGTGCTTTGCAATTGGCTTTGTTCTGA ATACAATTGCTATCTTCTACCGATCATTAGCGGCAATACCATTCGGCACAATGGTTGTCATGTT CGTTCTTTGGGCCTTCATTTCTTTTCCGCTGGTGCTTCTGGGAACTGTTGTTGGTAGGAACTGG AGTGGTGCTCCTAACAATCCCTGCCGAGTAAAGACTATTCCACGGCCTATTCCAGAGAAGAAGT GGTACCTTACACCTTCTGTTATCTCATTGATGGGTGGGCTGCTTCCCTTTGGCAGTATCTTCAT TGAGATGTACTTTGTGTTCACGTCATTCTGGAACTACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.326560686

Conservation Information
Conserved circRNAs	NA
PMCS	0.326560686

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3858429-3859847(+)
						
						Potential amino acid sequence
						
							MLYVGRGSIITTFIVCYALTSFISGYVSGGLYSRNGGKNWIKAMILTASLFPFLCFAIGFVLNT
IAIFYRSLAAIPFGTMVVMFVLWAFISFPLVLLGTVVGRNWSGAPNNPCRVKTIPRPIPEKKWY
LTPSVISLMGGLLPFGSIFIEMYFVFTSFWNYKERDVNEESGWKLVHGDVFRPPRSLAFLSAVV
GIGTQLAALILLVIVLAIVGMLYVGRGSIITTFIVCYALTSFISGYVSGGLYSRNGGKNWIKAM
ILTASLFPFLCFAIGFVLNTIAIFYRSLAAIPFGTMVVMFVLWAFISFPLVLLGTVVGRNWSGA
PNNPCRVKTIPRPIPEKKWYLTPSVISLMGGLLPFGSIFIEMYFVFTSFWNYKERDVNEESGWK
LVHGDVFRPPRSLAFLSAVVGIGTQLAALILLVIVLAIVGMLYVGRGSIITTFIVCYALTSFIS
GYVSGGLYSRNGGKNWIKAMILTASLFPFLCFAIGFVLNTIAIFYRSLAAIPFGTMVVMFVLWA
FISFPLVLLGTVVGRNWSGAPNNPCRVKTIPRPIPEKKWYLTPSVISLMGGLLPFGSIFIEMYF
VFTSFWNYKERDVNEESGWKLVHGDVFRPPRSLAFLSAVVGIGTQLAALILLVIVLAIVGMLYV
GRGSIITTFIVCYALTSFISGYVSGGLYSRNGGKNWIKAMILTASLFPFLCFAIGFVLNTIAIF
YRSLAAIPFGTMVVMFVLWAFISFPLVLLGTVVGRNWSGAPNNPCRVKTIPRPIPEKKWYLTPS
VISLMGGLLPFGSIFIEMYFVFTSFWNYK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3858429-3859847(+)
Potential amino acid sequence	MLYVGRGSIITTFIVCYALTSFISGYVSGGLYSRNGGKNWIKAMILTASLFPFLCFAIGFVLNT IAIFYRSLAAIPFGTMVVMFVLWAFISFPLVLLGTVVGRNWSGAPNNPCRVKTIPRPIPEKKWY LTPSVISLMGGLLPFGSIFIEMYFVFTSFWNYKERDVNEESGWKLVHGDVFRPPRSLAFLSAVV GIGTQLAALILLVIVLAIVGMLYVGRGSIITTFIVCYALTSFISGYVSGGLYSRNGGKNWIKAM ILTASLFPFLCFAIGFVLNTIAIFYRSLAAIPFGTMVVMFVLWAFISFPLVLLGTVVGRNWSGA PNNPCRVKTIPRPIPEKKWYLTPSVISLMGGLLPFGSIFIEMYFVFTSFWNYKERDVNEESGWK LVHGDVFRPPRSLAFLSAVVGIGTQLAALILLVIVLAIVGMLYVGRGSIITTFIVCYALTSFIS GYVSGGLYSRNGGKNWIKAMILTASLFPFLCFAIGFVLNTIAIFYRSLAAIPFGTMVVMFVLWA FISFPLVLLGTVVGRNWSGAPNNPCRVKTIPRPIPEKKWYLTPSVISLMGGLLPFGSIFIEMYF VFTSFWNYKERDVNEESGWKLVHGDVFRPPRSLAFLSAVVGIGTQLAALILLVIVLAIVGMLYV GRGSIITTFIVCYALTSFISGYVSGGLYSRNGGKNWIKAMILTASLFPFLCFAIGFVLNTIAIF YRSLAAIPFGTMVVMFVLWAFISFPLVLLGTVVGRNWSGAPNNPCRVKTIPRPIPEKKWYLTPS VISLMGGLLPFGSIFIEMYFVFTSFWNYK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os12g0175800_circ_g.1

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